Eimeria genomics: Where are we now and where are we going?
Eimeria genomics: Where are we now and where are we going?
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DOI：
10.1016/j.vetpar.2015.05.007
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发表时间：
2015-08-15
影响因子：
2.6
通讯作者：
Blake, Damer P.
中科院分区：
文献类型：
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作者：
Blake, Damer P.
测序技术的发展，从桑格到下一代（NGS），再到现在出现的第三代，已经促使基因组学从专业走向主流。对于寄生虫学，基因组学在原生动物中进展最快，序列组装可用于多个属，包括Babelium，Cryptosporidium，Eimeria，Giardia，Leishmania，Neospora，Plasmodium，Theileria，Toxoplasma和Trypanosoma。缺乏人畜共患病潜力的动物寄生虫的进展通常较慢，但目前正在弥补这一不足，可能在药物和疫苗开发、分子诊断和种群生物学领域产生影响。对顶复门艾美球虫属物种的基因组学研究清楚地说明了可用的方法和机会。具体而言，在基因组测序项目启动十多年后，2014年发表了柔嫩艾美耳球虫的序列组装，并补充了感染鸡和小鼠寄生虫镰状艾美耳球虫的所有其他艾美耳球虫物种的组装。公众通过GeneDB和ToxoDB等资源访问这些和其他球虫基因组组件，现在促进了比较分析，鼓励更好地利用共享资源，并增加了开发新的诊断和控制策略的机会。在短期内，基因组学资源支持开发靶向和全基因组遗传标记，如单核苷酸多态性（SNP），全基因组重新测序在不久的将来变得可行。随着对更多的物种、菌株和分离株进行采样，特别强调种群结构和等位基因多样性，实验能力将迅速发展。(C)2015 Elsevier B.V.版权所有。
The evolution of sequencing technologies, from Sanger to next generation (NGS) and now the emerging third generation, has prompted a radical frameshift moving genomics from the specialist to the mainstream. For parasitology, genomics has moved fastest for the protozoa with sequence assemblies becoming available for multiple genera including Babesia, Cryptosporidium, Eimeria, Giardia, Leishmania, Neospora, Plasmodium, Theileria, Toxoplasma and Trypanosoma. Progress has commonly been slower for parasites of animals which lack zoonotic potential, but the deficit is now being redressed with impact likely in the areas of drug and vaccine development, molecular diagnostics and population biology. Genomics studies with the apicomplexan Eimeria species clearly illustrate the approaches and opportunities available. Specifically, more than ten years after initiation of a genome sequencing project a sequence assembly was published for Eimeria tenella in 2014, complemented by assemblies for all other Eimeria species which infect the chicken and Eimeria falciformis, a parasite of the mouse. Public access to these and other coccidian genome assemblies through resources such as GeneDB and ToxoDB now promotes comparative analysis, encouraging better use of shared resources and enhancing opportunities for development of novel diagnostic and control strategies. In the short term genomics resources support development of targeted and genome-wide genetic markers such as single nucleotide polymorphisms (SNPs), with whole genome re-sequencing becoming viable in the near future. Experimental power will develop rapidly as additional species, strains and isolates are sampled with particular emphasis on population structure and allelic diversity. (C) 2015 Elsevier B.V. All rights reserved.